Comparison of protein and phosphorylation levels among different stages of LUAD

A composite function analyzes differential expression of eIF4F protein and phosphorylation in CPTAC LUAD data and plots results as boxplots

.plot_boxgraph_protein_CPTAC(protein_list)

Arguments

protein_list

protein names in a vector of string

Details

This function

• merges the LUAD proteomics values from EIF4F genes in the data frame prepared from .get_CPTAC_LUAD_Proteomics_subset() and phosphoproteomics data of the same protein in the data frame prepared from .get_CPTAC_LUAD_Phosproteomics_subset().

• uses the combined data to compare the abundance across different tumor stages, and plot the results with the function .protein_boxplot()

This function is not accessible to the user and will not show at the users' workspace. It can only be called by the exported EIF4F_Proteomics_analysis() function.

Side effects:

(1) boxplot to show the different expression of (phospho)protein across different clinical tumor stages

See also

Other composite function to call protein coexpression and differential expression analysis: .plot_scatterplot_protein_CPTAC()

Examples

if (FALSE) {
.plot_boxgraph_protein_CPTAC(c(
  "EIF4G1", "EIF4A1", "EIF4E", "EIF4EBP1",
  "AKT1", "MTOR", "EIF4B", "EIF4H", "MKNK1", "MKNK2"
))
}